MmuINT0130081 @ mm10
Intron Retention
Gene
ENSMUSG00000030359 | Pzp
Description
pregnancy zone protein [Source:MGI Symbol;Acc:MGI:87854]
Coordinates
chr6:128495900-128496753:-
Coord C1 exon
chr6:128496579-128496753
Coord A exon
chr6:128496129-128496578
Coord C2 exon
chr6:128495900-128496128
Length
450 bp
Sequences
Splice sites
5' ss Seq
GGAGTGAGT
5' ss Score
6.05
3' ss Seq
TTCTTTTTCCTCCATACCAGCGT
3' ss Score
7.46
Exon sequences
Seq C1 exon
TGGCACCTCAAGCCTTAGCTGTGGCTGCTTCAGGCCCAGGATCCAGCTTCAGAGCAATGGGCGTGCCGATGATGGGGTTGGACTACTCTGATGAAATTAATCAGGTGGTGGAAGTAAGAGAGACAGTGCGGAAGTACTTCCCTGAGACCTGGATCTGGGACCTGGTGCCACTGGA
Seq A exon
GTGAGTTGAGTGTCCCCTGGGATTTAGCATAGGTGAAGGTGTGAGTCCCTGCTCTGGGACTTTGGGTCCTGCTCCTGTCTTTCCCTTCTACAATCTCAGAGCAAAAATAATAATAATGATAATAATAATAATAATCCCTCTCCCCCTTATGTGGTTCCCAGGCAACAGAAGTAACAGAAAATAGGAAGCTGTCTTCTCCCCCAGGGAAAAAGAAAGGGAGCAAGAAAAAGAGAGAAAGAGGGAGAAAGAAAATAAAAATGGGAGGGACAGAGAAGGAGGGCAGAAGAGGGGAGGAGAGAACTTCCAGAGACTAACAGAAGCATCAGACCCCTAGATTTAGTTCCATGTTTTCTGTGCTTGGTTTCTGAACTATAGCTTTCTGGTTTGTTGTTTGTTTGTTTGTTTGTTTGTTTGTTTGTTGTTTTTCCTGTTCTTTTTCCTCCATACCAG
Seq C2 exon
CGTATCCGGGGACGGTGAATTGGCGGTAAAGGTCCCCGACACCATCACTGAGTGGAAGGCCAGTGCATTCTGCTTGTCTGGAACCACTGGCCTTGGCCTCTCCTCCACCATCTCCCTTCAAGCCTTCCAGCCCTTCTTCTTGGAGCTCACTCTCCCATACTCTGTGGTGCGAGGGGAAGCCTTTACCCTCAAAGCCACCGTGCTCAATTACATGTCTCACTGCATTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030359:ENSMUST00000112132:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0020717=A2M=PU(9.9=15.3)
A:
NA
C2:
PF0020717=A2M=FE(83.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCCAGGATCCAGCTTCAGAG
R:
AATTGAGCACGGTGGCTTTGA
Band lengths:
351-801
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types